What braking system are you using?
Are there separate lights within the rear lenses for run/stop/turn that are independent of your CRVs stock ones?
I cannot figure out what they're talking about by "computer problems" if a charge line is used. Your toad battery will not know the difference between a charge line from the MH and a regular battery charger. Therefore the same logic would apply if say by chance you ran your battery down by accident and wanted to put a battery charger on it for awhile.
I do know that there was a Service Bulletin issued by Honda for a problem with discharging of batteries in a very short time.. not sure if this is related to CW's thoughts on this: http://www.crvownersclub.com/forums/...-12-041-2-.pdf